data_5IB4
#
_model_server_result.job_id            mKAu0-z9Mc9Z5VuPzVEYSQ 
_model_server_result.datetime_utc      '2024-10-18 16:22:15' 
_model_server_result.server_version    0.9.12 
_model_server_result.query_name        ligand 
_model_server_result.source_id         pdb-bcif 
_model_server_result.entry_id          5ib4 
#
_model_server_params.name     atom_site 
_model_server_params.value    '{"label_asym_id":"E","auth_seq_id":302}' 
#
_entry.id    5IB4 
#
_exptl.entry_id    5IB4 
_exptl.method      'X-RAY DIFFRACTION' 
#
_entity.details                     ? 
_entity.formula_weight              92.094 
_entity.id                          5 
_entity.src_method                  syn 
_entity.type                        non-polymer 
_entity.pdbx_description            GLYCEROL 
_entity.pdbx_number_of_molecules    2 
_entity.pdbx_parent_entity_id       . 
_entity.pdbx_mutation               ? 
_entity.pdbx_fragment               ? 
_entity.pdbx_ec                     ? 
#
_cell.angle_alpha         90 
_cell.angle_beta          107.83 
_cell.angle_gamma         90 
_cell.entry_id            5IB4 
_cell.length_a            51.13 
_cell.length_b            81.74 
_cell.length_c            65.12 
_cell.Z_PDB               2 
_cell.pdbx_unique_axis    ? 
#
_symmetry.entry_id                 5IB4 
_symmetry.cell_setting             ? 
_symmetry.Int_Tables_number        4 
_symmetry.space_group_name_Hall    ? 
_symmetry.space_group_name_H-M     'P 1 21 1' 
#
_pdbx_struct_assembly.method_details        PISA 
_pdbx_struct_assembly.oligomeric_details    trimeric 
_pdbx_struct_assembly.oligomeric_count      3 
_pdbx_struct_assembly.details               author_and_software_defined_assembly 
_pdbx_struct_assembly.id                    1 
#
_pdbx_struct_assembly_gen.asym_id_list       A,B,C,D,E,F,G,H,I,J 
_pdbx_struct_assembly_gen.assembly_id        1 
_pdbx_struct_assembly_gen.oper_expression    1 
#
_pdbx_struct_oper_list.id                    1 
_pdbx_struct_oper_list.type                  'identity operation' 
_pdbx_struct_oper_list.name                  1_555 
_pdbx_struct_oper_list.symmetry_operation    x,y,z 
_pdbx_struct_oper_list.matrix[1][1]          1 
_pdbx_struct_oper_list.matrix[1][2]          0 
_pdbx_struct_oper_list.matrix[1][3]          0 
_pdbx_struct_oper_list.matrix[2][1]          0 
_pdbx_struct_oper_list.matrix[2][2]          1 
_pdbx_struct_oper_list.matrix[2][3]          0 
_pdbx_struct_oper_list.matrix[3][1]          0 
_pdbx_struct_oper_list.matrix[3][2]          0 
_pdbx_struct_oper_list.matrix[3][3]          1 
_pdbx_struct_oper_list.vector[1]             0 
_pdbx_struct_oper_list.vector[2]             0 
_pdbx_struct_oper_list.vector[3]             0 
#
loop_
_struct_asym.details
_struct_asym.entity_id
_struct_asym.id
_struct_asym.pdbx_modified
_struct_asym.pdbx_blank_PDB_chainid_flag
? 5 E N N 
? 5 F N N 
#
loop_
_struct_conn.conn_type_id
_struct_conn.details
_struct_conn.id
_struct_conn.ptnr1_label_asym_id
_struct_conn.ptnr1_label_atom_id
_struct_conn.ptnr1_label_comp_id
_struct_conn.ptnr1_label_seq_id
_struct_conn.ptnr1_auth_asym_id
_struct_conn.ptnr1_auth_comp_id
_struct_conn.ptnr1_auth_seq_id
_struct_conn.ptnr1_symmetry
_struct_conn.ptnr2_label_asym_id
_struct_conn.ptnr2_label_atom_id
_struct_conn.ptnr2_label_comp_id
_struct_conn.ptnr2_label_seq_id
_struct_conn.ptnr2_auth_asym_id
_struct_conn.ptnr2_auth_comp_id
_struct_conn.ptnr2_auth_seq_id
_struct_conn.ptnr2_symmetry
_struct_conn.pdbx_ptnr1_PDB_ins_code
_struct_conn.pdbx_ptnr1_label_alt_id
_struct_conn.pdbx_ptnr1_standard_comp_id
_struct_conn.pdbx_ptnr2_PDB_ins_code
_struct_conn.pdbx_ptnr2_label_alt_id
_struct_conn.pdbx_ptnr3_PDB_ins_code
_struct_conn.pdbx_ptnr3_label_alt_id
_struct_conn.pdbx_ptnr3_label_asym_id
_struct_conn.pdbx_ptnr3_label_atom_id
_struct_conn.pdbx_ptnr3_label_comp_id
_struct_conn.pdbx_ptnr3_label_seq_id
_struct_conn.pdbx_PDB_id
_struct_conn.pdbx_dist_value
_struct_conn.pdbx_value_order
disulf ? disulf1 A SG CYS 101 A CYS 101 1_555 A SG CYS 164 A CYS 164 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.203 ? 
disulf ? disulf2 A SG CYS 203 A CYS 203 1_555 A SG CYS 259 A CYS 259 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.037 ? 
disulf ? disulf3 B SG CYS 26 B CYS 25 1_555 B SG CYS 81 B CYS 80 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.051 ? 
metalc ? metalc1 A N GLY 1 A GLY 1 1_555 D NI NI . A NI 301 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.919 ? 
metalc ? metalc2 A O GLY 1 A GLY 1 1_555 D NI NI . A NI 301 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.372 ? 
metalc ? metalc3 A NE2 HIS 3 A HIS 3 1_555 D NI NI . A NI 301 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.209 ? 
metalc ? metalc4 A NE2 HIS 197 A HIS 197 1_555 G NI NI . C NI 101 1_656 ? ? ? ? B ? ? ? ? ? ? ? 1.954 ? 
metalc ? metalc5 D NI NI . A NI 301 1_555 H O HOH . A HOH 440 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.905 ? 
metalc ? metalc6 D NI NI . A NI 301 1_555 H O HOH . A HOH 521 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.418 ? 
metalc ? metalc7 D NI NI . A NI 301 1_555 H O HOH . A HOH 523 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.084 ? 
metalc ? metalc8 H O HOH . A HOH 401 1_454 G NI NI . C NI 101 1_555 ? B ? ? B ? ? ? ? ? ? ? 2.071 ? 
metalc ? metalc9 H O HOH . A HOH 422 1_454 G NI NI . C NI 101 1_555 ? B ? ? B ? ? ? ? ? ? ? 2.084 ? 
metalc ? metalc10 H O HOH . A HOH 491 1_454 G NI NI . C NI 101 1_555 ? ? ? ? B ? ? ? ? ? ? ? 2.077 ? 
metalc ? metalc11 C NE2 HIS 8 C HIS 8 1_555 G NI NI . C NI 101 1_555 ? ? ? ? B ? ? ? ? ? ? ? 2.135 ? 
#
_chem_comp.formula           'C3 H8 O3' 
_chem_comp.formula_weight    92.094 
_chem_comp.id                GOL 
_chem_comp.mon_nstd_flag     . 
_chem_comp.name              GLYCEROL 
_chem_comp.type              non-polymer 
_chem_comp.pdbx_synonyms     GLYCERIN;PROPANE-1,2,3-TRIOL 
#
loop_
_chem_comp_bond.atom_id_1
_chem_comp_bond.atom_id_2
_chem_comp_bond.comp_id
_chem_comp_bond.value_order
_chem_comp_bond.pdbx_ordinal
_chem_comp_bond.pdbx_stereo_config
_chem_comp_bond.pdbx_aromatic_flag
C1 O1 GOL sing 129 n n 
C1 C2 GOL sing 130 n n 
C1 H11 GOL sing 131 n n 
C1 H12 GOL sing 132 n n 
O1 HO1 GOL sing 133 n n 
C2 O2 GOL sing 134 n n 
C2 C3 GOL sing 135 n n 
C2 H2 GOL sing 136 n n 
O2 HO2 GOL sing 137 n n 
C3 O3 GOL sing 138 n n 
C3 H31 GOL sing 139 n n 
C3 H32 GOL sing 140 n n 
O3 HO3 GOL sing 141 n n 
#
_atom_sites.entry_id                     5IB4 
_atom_sites.fract_transf_matrix[1][1]    0.019558 
_atom_sites.fract_transf_matrix[1][2]    0 
_atom_sites.fract_transf_matrix[1][3]    0.006293 
_atom_sites.fract_transf_matrix[2][1]    0 
_atom_sites.fract_transf_matrix[2][2]    0.012234 
_atom_sites.fract_transf_matrix[2][3]    0 
_atom_sites.fract_transf_matrix[3][1]    0 
_atom_sites.fract_transf_matrix[3][2]    0 
_atom_sites.fract_transf_matrix[3][3]    0.016132 
_atom_sites.fract_transf_vector[1]       0 
_atom_sites.fract_transf_vector[2]       0 
_atom_sites.fract_transf_vector[3]       0 
#
loop_
_pdbx_nonpoly_scheme.asym_id
_pdbx_nonpoly_scheme.entity_id
_pdbx_nonpoly_scheme.mon_id
_pdbx_nonpoly_scheme.pdb_strand_id
_pdbx_nonpoly_scheme.ndb_seq_num
_pdbx_nonpoly_scheme.pdb_seq_num
_pdbx_nonpoly_scheme.auth_seq_num
_pdbx_nonpoly_scheme.pdb_mon_id
_pdbx_nonpoly_scheme.auth_mon_id
_pdbx_nonpoly_scheme.pdb_ins_code
D 4 NI A 1 301 2 NI NI . 
E 5 GOL A 1 302 1277 GOL GOL . 
F 5 GOL B 1 101 1278 GOL GOL . 
G 4 NI C 1 101 1 NI NI . 
H 6 HOH A 1 401 88 HOH HOH . 
H 6 HOH A 2 402 191 HOH HOH . 
H 6 HOH A 3 403 77 HOH HOH . 
H 6 HOH A 4 404 51 HOH HOH . 
H 6 HOH A 5 405 29 HOH HOH . 
H 6 HOH A 6 406 13 HOH HOH . 
H 6 HOH A 7 407 39 HOH HOH . 
H 6 HOH A 8 408 3 HOH HOH . 
H 6 HOH A 9 409 41 HOH HOH . 
H 6 HOH A 10 410 16 HOH HOH . 
H 6 HOH A 11 411 74 HOH HOH . 
H 6 HOH A 12 412 18 HOH HOH . 
H 6 HOH A 13 413 109 HOH HOH . 
H 6 HOH A 14 414 44 HOH HOH . 
H 6 HOH A 15 415 102 HOH HOH . 
H 6 HOH A 16 416 126 HOH HOH . 
H 6 HOH A 17 417 4 HOH HOH . 
H 6 HOH A 18 418 48 HOH HOH . 
H 6 HOH A 19 419 75 HOH HOH . 
H 6 HOH A 20 420 140 HOH HOH . 
H 6 HOH A 21 421 55 HOH HOH . 
H 6 HOH A 22 422 183 HOH HOH . 
H 6 HOH A 23 423 11 HOH HOH . 
H 6 HOH A 24 424 125 HOH HOH . 
H 6 HOH A 25 425 45 HOH HOH . 
H 6 HOH A 26 426 36 HOH HOH . 
H 6 HOH A 27 427 50 HOH HOH . 
H 6 HOH A 28 428 204 HOH HOH . 
H 6 HOH A 29 429 27 HOH HOH . 
H 6 HOH A 30 430 64 HOH HOH . 
H 6 HOH A 31 431 133 HOH HOH . 
H 6 HOH A 32 432 117 HOH HOH . 
H 6 HOH A 33 433 72 HOH HOH . 
H 6 HOH A 34 434 127 HOH HOH . 
H 6 HOH A 35 435 63 HOH HOH . 
H 6 HOH A 36 436 71 HOH HOH . 
H 6 HOH A 37 437 171 HOH HOH . 
H 6 HOH A 38 438 152 HOH HOH . 
H 6 HOH A 39 439 57 HOH HOH . 
H 6 HOH A 40 440 185 HOH HOH . 
H 6 HOH A 41 441 144 HOH HOH . 
H 6 HOH A 42 442 175 HOH HOH . 
H 6 HOH A 43 443 174 HOH HOH . 
H 6 HOH A 44 444 101 HOH HOH . 
H 6 HOH A 45 445 2 HOH HOH . 
H 6 HOH A 46 446 12 HOH HOH . 
H 6 HOH A 47 447 40 HOH HOH . 
H 6 HOH A 48 448 108 HOH HOH . 
H 6 HOH A 49 449 114 HOH HOH . 
H 6 HOH A 50 450 139 HOH HOH . 
H 6 HOH A 51 451 53 HOH HOH . 
H 6 HOH A 52 452 205 HOH HOH . 
H 6 HOH A 53 453 47 HOH HOH . 
H 6 HOH A 54 454 33 HOH HOH . 
H 6 HOH A 55 455 68 HOH HOH . 
H 6 HOH A 56 456 8 HOH HOH . 
H 6 HOH A 57 457 112 HOH HOH . 
H 6 HOH A 58 458 91 HOH HOH . 
H 6 HOH A 59 459 188 HOH HOH . 
H 6 HOH A 60 460 61 HOH HOH . 
H 6 HOH A 61 461 56 HOH HOH . 
H 6 HOH A 62 462 17 HOH HOH . 
H 6 HOH A 63 463 28 HOH HOH . 
H 6 HOH A 64 464 176 HOH HOH . 
H 6 HOH A 65 465 81 HOH HOH . 
H 6 HOH A 66 466 128 HOH HOH . 
H 6 HOH A 67 467 182 HOH HOH . 
H 6 HOH A 68 468 132 HOH HOH . 
H 6 HOH A 69 469 25 HOH HOH . 
H 6 HOH A 70 470 5 HOH HOH . 
H 6 HOH A 71 471 32 HOH HOH . 
H 6 HOH A 72 472 179 HOH HOH . 
H 6 HOH A 73 473 6 HOH HOH . 
H 6 HOH A 74 474 46 HOH HOH . 
H 6 HOH A 75 475 94 HOH HOH . 
H 6 HOH A 76 476 58 HOH HOH . 
H 6 HOH A 77 477 10 HOH HOH . 
H 6 HOH A 78 478 85 HOH HOH . 
H 6 HOH A 79 479 42 HOH HOH . 
H 6 HOH A 80 480 98 HOH HOH . 
H 6 HOH A 81 481 20 HOH HOH . 
H 6 HOH A 82 482 134 HOH HOH . 
H 6 HOH A 83 483 38 HOH HOH . 
H 6 HOH A 84 484 143 HOH HOH . 
H 6 HOH A 85 485 26 HOH HOH . 
H 6 HOH A 86 486 15 HOH HOH . 
H 6 HOH A 87 487 146 HOH HOH . 
H 6 HOH A 88 488 103 HOH HOH . 
H 6 HOH A 89 489 173 HOH HOH . 
H 6 HOH A 90 490 206 HOH HOH . 
H 6 HOH A 91 491 104 HOH HOH . 
H 6 HOH A 92 492 19 HOH HOH . 
H 6 HOH A 93 493 145 HOH HOH . 
H 6 HOH A 94 494 95 HOH HOH . 
H 6 HOH A 95 495 62 HOH HOH . 
H 6 HOH A 96 496 54 HOH HOH . 
H 6 HOH A 97 497 37 HOH HOH . 
H 6 HOH A 98 498 24 HOH HOH . 
H 6 HOH A 99 499 34 HOH HOH . 
H 6 HOH A 100 500 65 HOH HOH . 
H 6 HOH A 101 501 89 HOH HOH . 
H 6 HOH A 102 502 169 HOH HOH . 
H 6 HOH A 103 503 105 HOH HOH . 
H 6 HOH A 104 504 9 HOH HOH . 
H 6 HOH A 105 505 196 HOH HOH . 
H 6 HOH A 106 506 79 HOH HOH . 
H 6 HOH A 107 507 92 HOH HOH . 
H 6 HOH A 108 508 113 HOH HOH . 
H 6 HOH A 109 509 194 HOH HOH . 
H 6 HOH A 110 510 60 HOH HOH . 
H 6 HOH A 111 511 142 HOH HOH . 
H 6 HOH A 112 512 180 HOH HOH . 
H 6 HOH A 113 513 7 HOH HOH . 
H 6 HOH A 114 514 178 HOH HOH . 
H 6 HOH A 115 515 66 HOH HOH . 
H 6 HOH A 116 516 67 HOH HOH . 
H 6 HOH A 117 517 203 HOH HOH . 
H 6 HOH A 118 518 177 HOH HOH . 
H 6 HOH A 119 519 189 HOH HOH . 
H 6 HOH A 120 520 119 HOH HOH . 
H 6 HOH A 121 521 193 HOH HOH . 
H 6 HOH A 122 522 110 HOH HOH . 
H 6 HOH A 123 523 186 HOH HOH . 
H 6 HOH A 124 524 190 HOH HOH . 
H 6 HOH A 125 525 161 HOH HOH . 
H 6 HOH A 126 526 168 HOH HOH . 
H 6 HOH A 127 527 172 HOH HOH . 
H 6 HOH A 128 528 73 HOH HOH . 
H 6 HOH A 129 529 129 HOH HOH . 
H 6 HOH A 130 530 141 HOH HOH . 
H 6 HOH A 131 531 201 HOH HOH . 
H 6 HOH A 132 532 100 HOH HOH . 
H 6 HOH A 133 533 184 HOH HOH . 
H 6 HOH A 134 534 187 HOH HOH . 
H 6 HOH A 135 535 181 HOH HOH . 
H 6 HOH A 136 536 83 HOH HOH . 
H 6 HOH A 137 537 138 HOH HOH . 
H 6 HOH A 138 538 131 HOH HOH . 
H 6 HOH A 139 539 121 HOH HOH . 
H 6 HOH A 140 540 107 HOH HOH . 
H 6 HOH A 141 541 200 HOH HOH . 
H 6 HOH A 142 542 84 HOH HOH . 
H 6 HOH A 143 543 86 HOH HOH . 
H 6 HOH A 144 544 43 HOH HOH . 
H 6 HOH A 145 545 158 HOH HOH . 
H 6 HOH A 146 546 106 HOH HOH . 
H 6 HOH A 147 547 136 HOH HOH . 
H 6 HOH A 148 548 170 HOH HOH . 
H 6 HOH A 149 549 198 HOH HOH . 
I 6 HOH B 1 201 70 HOH HOH . 
I 6 HOH B 2 202 59 HOH HOH . 
I 6 HOH B 3 203 147 HOH HOH . 
I 6 HOH B 4 204 192 HOH HOH . 
I 6 HOH B 5 205 23 HOH HOH . 
I 6 HOH B 6 206 162 HOH HOH . 
I 6 HOH B 7 207 31 HOH HOH . 
I 6 HOH B 8 208 166 HOH HOH . 
I 6 HOH B 9 209 22 HOH HOH . 
I 6 HOH B 10 210 151 HOH HOH . 
I 6 HOH B 11 211 163 HOH HOH . 
I 6 HOH B 12 212 202 HOH HOH . 
I 6 HOH B 13 213 52 HOH HOH . 
I 6 HOH B 14 214 14 HOH HOH . 
I 6 HOH B 15 215 96 HOH HOH . 
I 6 HOH B 16 216 97 HOH HOH . 
I 6 HOH B 17 217 69 HOH HOH . 
I 6 HOH B 18 218 199 HOH HOH . 
I 6 HOH B 19 219 149 HOH HOH . 
I 6 HOH B 20 220 93 HOH HOH . 
I 6 HOH B 21 221 30 HOH HOH . 
I 6 HOH B 22 222 76 HOH HOH . 
I 6 HOH B 23 223 82 HOH HOH . 
I 6 HOH B 24 224 160 HOH HOH . 
I 6 HOH B 25 225 49 HOH HOH . 
I 6 HOH B 26 226 21 HOH HOH . 
I 6 HOH B 27 227 80 HOH HOH . 
I 6 HOH B 28 228 155 HOH HOH . 
I 6 HOH B 29 229 156 HOH HOH . 
I 6 HOH B 30 230 122 HOH HOH . 
I 6 HOH B 31 231 159 HOH HOH . 
I 6 HOH B 32 232 148 HOH HOH . 
I 6 HOH B 33 233 157 HOH HOH . 
I 6 HOH B 34 234 154 HOH HOH . 
I 6 HOH B 35 235 197 HOH HOH . 
I 6 HOH B 36 236 99 HOH HOH . 
I 6 HOH B 37 237 130 HOH HOH . 
I 6 HOH B 38 238 165 HOH HOH . 
I 6 HOH B 39 239 115 HOH HOH . 
I 6 HOH B 40 240 164 HOH HOH . 
I 6 HOH B 41 241 167 HOH HOH . 
I 6 HOH B 42 242 111 HOH HOH . 
J 6 HOH C 1 201 195 HOH HOH . 
J 6 HOH C 2 202 1 HOH HOH . 
J 6 HOH C 3 203 123 HOH HOH . 
J 6 HOH C 4 204 90 HOH HOH . 
#
loop_
_atom_site.group_PDB
_atom_site.id
_atom_site.type_symbol
_atom_site.label_atom_id
_atom_site.label_comp_id
_atom_site.label_seq_id
_atom_site.label_alt_id
_atom_site.pdbx_PDB_ins_code
_atom_site.label_asym_id
_atom_site.label_entity_id
_atom_site.Cartn_x
_atom_site.Cartn_y
_atom_site.Cartn_z
_atom_site.occupancy
_atom_site.B_iso_or_equiv
_atom_site.pdbx_formal_charge
_atom_site.auth_atom_id
_atom_site.auth_comp_id
_atom_site.auth_seq_id
_atom_site.auth_asym_id
_atom_site.pdbx_PDB_model_num
HETATM 1 C C1 GOL . . . E 5 13.623 -5.386 5.845 1 38.27 ? C1 GOL 302 A 1 
HETATM 2 O O1 GOL . . . E 5 12.801 -5.683 4.71 1 32.18 ? O1 GOL 302 A 1 
HETATM 3 C C2 GOL . . . E 5 14.354 -4.101 5.504 1 37.46 ? C2 GOL 302 A 1 
HETATM 4 O O2 GOL . . . E 5 15.167 -3.712 6.597 1 35.43 ? O2 GOL 302 A 1 
HETATM 5 C C3 GOL . . . E 5 13.228 -3.114 5.271 1 37.64 ? C3 GOL 302 A 1 
HETATM 6 O O3 GOL . . . E 5 12.551 -2.995 6.51 1 39.79 ? O3 GOL 302 A 1 
#
_model_server_stats.io_time_ms              0 
_model_server_stats.parse_time_ms           12 
_model_server_stats.create_model_time_ms    4 
_model_server_stats.query_time_ms           258 
_model_server_stats.encode_time_ms          4 
_model_server_stats.element_count           6 
#